Odd thing happening to my transitions

Hello,
Scenario: 15 minute, 720p, 59.94 program using only Premiere CS6. Two runs of the same program are placed back-to-back on timeline and burned to standard def DVD via Dynamic Link to Encore (account can only purchase 30 minute blocks of time thus the need to play same program twice).  Burned to SD DVD for delivery to local cable broadcaster. Transitions used are Premiere's Cross Dissolve.
After burning to DVD the 30 frame transitions on the first instance of program play fine. On the second instance of program the transitions are not as smooth.
Problem not detectable when playing from timeline in program monitor or on external Sony pro production monitor.
I've never seen anything like this but then I've done a program like this where it is played twice, in succession.
I deleted the render files and re-rendered and re-burned. No luck.
Thanks for any insights.
wsmith  

Hi DMH79, Thanks for your response and insight on this.
Yeah, transitions on that video look like mine. To be honest, I thought there was something wrong when playing pack from my timeline but it didn't so bad that it was killer and the account was not complaining when I gave them drafts of the program encoded to MP4 files at the project's full 1280x720p rez. But output to DVD made them considerably more apparent. When the account sees that they will undoubtedly complain.
I've been primarily involved with location audio production over the past couple of years and I guess I forgot what smooth cross-dissolves are supposed to look like. (This is the first video production project I've worked on in CS6... So the problem is indeed apparent on the timeline and significantly worse on DVD output.      
After looking at this thread, I have decided to do a test by changing from GPU Acceleration to software only and thus the timeline is now being re-rendered accordingly.
I'll let post the results here soon, after the DVD burn. 
I wonder if we could speak on the phone briefly re an Adobe matter unrelated to this and thus not really appropriate for this thread BUT definitely a matter of concern which I think many users are not even aware of. I'd like to get some private opinions before posting in these forums and how to approach that. 
Thanks!
Wade
954-319-5769.            

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